Parties d'ouvrages collectifs (1)
  1. 1. Pucci, F., & Rooman, M. (2016). A little walk from physical to biological complexity: protein folding and stability. In About various kinds of interactions: published in honor of Philippe Spindel’s 65th birthday. UMons University Press: edited by N. Boulanger and S. Detournay.
    2.   Articles dans des revues avec comité de lecture (66)
  2. 1. Tsishyn, M., Hermans, P., Rooman, M., & Pucci, F. (2025). Residue conservation and solvent accessibility are (almost) all you need for predicting mutational effects in proteins. Bioinformatics, 41(6). doi:10.1093/bioinformatics/btaf322
  3. 2. Jain, S., Trinidad, M., Nguyen, T. B., Jones, K., Neto, S. D., Ge, F., Glagovsky, A., Jones, C., Moran, G., Wang, B., Rahimi, K., Çalıcı, S. Z., Cedillo, L., Berardelli, S., Özden, B., Chen, K., Katsonis, P., Williams, A., Lichtarge, O., Rana, S., Pradhan, S., Srinivasan, R., Sajeed, R., Joshi, D., Faraggi, E., Jernigan, R., Kloczkowski, A., Xu, J., Song, Z., Özkan, S., Padilla, N., de la Cruz, X., Acuna-Hidalgo, R., Grafmüller, A., Barrón, L. T. J., Manfredi, M., Savojardo, C., Babbi, G., Martelli, P. L., Casadio, R. R., Sun, Y., Zhu, S., Shen, Y., Pucci, F., Rooman, M., Cia, G., Raimondi, D., Hermans, P., Kwee, S., Chen, E., Astore, C., Kamandula, A., Pejaver, V., Ramola, R., Velyunskiy, M., Zeiberg, D., Mishra, R., Sterling, T., Goldstein, J. L., Lugo-Martinez, J., Kazi, S., Li, S., Long, K., Brenner, S. E., Bakolitsa, C., Radivojac, P., Suhr, D., Suhr, T., & Clark, W. T. (2025). Evaluation of enzyme activity predictions for variants of unknown significance in Arylsulfatase A. Human genetics, 144(2-3), 295-308. doi:10.1007/s00439-025-02731-3
  4. 3. Rastogi, R., Chung, R., Li, S., Li, C., Lee, K., Woo, J., Kim, D. W., Keum, C., Babbi, G., Martelli, P. L., Savojardo, C., Casadio, R. R., Chennen, K., Weber, T. S., Poch, O., Ancien, F., Camperio Ciani, G., Pucci, F., Raimondi, D., Vranken, W., Rooman, M., Marquet, C., Olenyi, T., Rost, B., Andreoletti, G., Kamandula, A., Peng, Y., Bakolitsa, C., Mort, M., Cooper, D. N., Bergquist, T., Pejaver, V., Liu, X., Radivojac, P., Brenner, S. E., & Ioannidis, N. M. (2025). Critical assessment of missense variant effect predictors on disease-relevant variant data. Human genetics, 144(2-3), 281-293. doi:10.1007/s00439-025-02732-2
  5. 4. Upadhyay, U., Pucci, F., Herold, J., & Schug, A. (2025). NucleoSeeker—precision filtering of RNA databases to curate high-quality datasets. NAR Genomics and Bioinformatics, 7(1), lqaf021. doi:10.1093/nargab/lqaf021
  6. 5. Bu, F., Adam, Y., Adamiak, R., Antczak, M., de Aquino, B. R., Badepally, N. G., Batey, R., Baulin, E., Boinski, P., Boniecki, M., Bujnicki, J. M., Carpenter, K. L., Chacon, J., Chen, S.-J., Chiu, W., Cordero, P., Das, N. K., Das, R., Dawson, W., DiMaio, F., Ding, F., Dock-Bregeon, A.-C., Dokholyan, N., Dror, R., Dunin-Horkawicz, S., Eismann, S., Ennifar, E., Esmaeeli, R., Farsani, M. A., Ferré-D’Amaré, A., Geniesse, C., Ghanim, G., Guzman, H. V., Hood, I., Huang, L., Jain, D. S., Jaryani, F., Jin, L., Joshi, A., Karelina, M., Kieft, J., Kladwang, W., Kmiecik, S., Koirala, D., Kollmann, M., Kretsch, R., Kurciński, M., Li, J., Li, S., Magnus, M., Masquida, B., Moafinejad, N., Mondal, A., Mukherjee, S., Nguyen, T. H. D., Nikolaev, G., Nithin, C., Nye, G., Pandaranadar Jeyeram, I., Perez, A., Pham, P., Piccirilli, J. A., Pilla, S. P., Pluta, R., Poblete, S., Ponce-Salvatierra, A., Popenda, M., Popenda, L., Pucci, F., Rangan, R., Ray, A., Ren, A., Sarzynska, J., Sha, C. M., Stefaniak, F., Su, Z., Suddala, K., Szachniuk, M., Townshend, R., Trachman, R., Wang, J., Wang, W., Watkins, A., Wirecki, T., Xiao, Y., Xiong, P., Xiong, Y., Yang, J., Yesselman, J. D., Zhang, J., Zhang, Y., Zhang, Z., Zhou, Y., Zok, T., Zhang, D., Zhang, S., Żyła, A., Westhof, E., & Miao, Z. (2025). RNA-Puzzles Round V: blind predictions of 23 RNA structures. Nature methods, 22(2), 399-411. doi:10.1038/s41592-024-02543-9
  7. 6. Turina, M. P., Petrosino, M., Enriquez Sandoval, C., Novak, L., Pasquo, A., Alexov, E., Alladin, M. A., Ascher, D., Babbi, G., Bakolitsa, C., Casadio, R. R., Cheng, J., Fariselli, P., Folkman, L., Kamandula, A., Katsonis, P., Li, M., Li, D., Lichtarge, O., Mahmud, S., Martelli, P. L., Pal, D., Panday, S. K., Pires, D. E. V., Portelli, S., Pucci, F., Rodrigues, C. H. M., Rooman, M., Savojardo, C., Schwersensky, M., Shen, Y., Strokach, A. V., Sun, Y., Woo, J., Radivojac, P., Brenner, S. E., Chiaraluce, R., Consalvi, V., & Capriotti, E. (2025). Assessing the predicted impact of single amino acid substitutions in MAPK proteins for CAGI6 challenges. Human genetics. doi:10.1007/s00439-024-02724-8
  8. 7. Hermans, P., Tsishyn, M., Schwersensky, M., Rooman, M., & Pucci, F. (2025). Exploring Evolution to Uncover Insights Into Protein Mutational Stability. Molecular biology and evolution, 42(1). doi:10.1093/molbev/msae267
  9. 8. Benaroua, C., Pucci, F., Rooman, M., Picod, A., Favory, R., Legrand, M., Vincent, J. L., Creteur, J., Taccone, F., Annoni, F., & Garcia, B. (2025). Alterations in the renin-angiotensin system during septic shock. Annals of intensive care, 15(1). doi:10.1186/s13613-025-01463-x
  10. 9. Turina, M. P., Dal Cortivo, G., Enriquez Sandoval, C. A., Alexov, E., Ascher, D. B., Babbi, G., Bakolitsa, C., Casadio, R. R., Fariselli, P., Folkman, L., Kamandula, A., Katsonis, P., Li, D., Lichtarge, O., Martelli, P. L., Panday, S. K., Pires, D. E. V., Portelli, S., Pucci, F., Rodrigues, C. H. M., Rooman, M., Savojardo, C., Schwersensky, M., Shen, Y., Strokach, A. V., Sun, Y., Woo, J., Radivojac, P., Brenner, S. E., Dell’Orco, D., & Capriotti, E. (2024). Assessing the predicted impact of single amino acid substitutions in calmodulin for CAGI6 challenges. Human genetics. doi:10.1007/s00439-024-02720-y
  11. 10. Zhang, J., Kinch, L., Katsonis, P., Lichtarge, O., Jagota, M., Song, Y. S., Sun, Y., Shen, Y., Kuru, N., Dereli, O., Adebali, O., Alladin, M. A., Pal, D., Capriotti, E., Turina, M. P., Savojardo, C., Martelli, P. L., Babbi, G., Casadio, R. R., Pucci, F., Rooman, M., Cia Beriain, G., Tsishyn, M., Strokach, A., Hu, Z., van Loggerenberg, W., Roth, F. P., Radivojac, P., Brenner, S. E., Cong, Q., & Grishin, N. (2024). Assessing predictions on fitness effects of missense variants in HMBS in CAGI6. Human genetics. doi:10.1007/s00439-024-02680-3
  12. 11. Li, D., Pucci, F., & Rooman, M. (2024). Prediction of Paratope–Epitope Pairs Using Convolutional Neural Networks. International Journal of Molecular Sciences (CD-ROM), 25(10), 5434. doi:10.3390/ijms25105434
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